Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F1 I1 R1
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,240,057 |
+T |
intergenic (‑57/‑218) |
h16_A1136 ← / → grpE |
conserved hypothetical protein/molecular chaperone GrpE |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,240,053 | 1 | . | T | 100.0%
| 48.9
/ NA
| 14 | intergenic (‑53/‑222) | h16_A1136/grpE | conserved hypothetical protein/molecular chaperone GrpE |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base T (6/8); total (6/8) |
GCCGGAAAGGCAGATAAAGACGGTCATGACCGCCAATGCGGCCACAAGGCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCA‑TTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCATATGCCTGGCCTTTGTAACCGTGTGTTTCCGCGTCACGCCAGCGCCACTCTT > AM260479/1239923‑1240173
|
gcCGGAAAGGCAGATAAAGACGGTCATGACCGCCAATGCGGCCACAAGGCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCA‑ttt > 1:989516/1‑134 (MQ=255)
ccGGAAAGGCAGATAAAGACGGTCATGACCGCCAATGCGGCCACAAGGCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCA‑tttt < 1:907423/134‑1 (MQ=255)
tCATGACCGCCAATGCGGCCACAAGGCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTttatta > 1:758094/1‑126 (MQ=255)
tCATGACCGCCAATGCGGCCACAAGGCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTttatta < 2:758094/126‑1 (MQ=255)
ggCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCagcaaag < 1:303822/134‑1 (MQ=255)
aCGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCg < 1:484931/133‑1 (MQ=255)
gCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGAt > 1:9186/1‑128 (MQ=255)
gCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGAt < 2:9186/128‑1 (MQ=255)
tGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCATATGcc < 1:458223/133‑1 (MQ=255)
aTGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCg > 1:844984/1‑115 (MQ=255)
aTGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCg < 2:844984/115‑1 (MQ=255)
tCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGAtt < 1:488586/80‑1 (MQ=255)
tCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGAtt > 2:488586/1‑80 (MQ=255)
aTCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCata < 1:199138/90‑1 (MQ=255)
aTCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCata > 2:199138/1‑90 (MQ=255)
caACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCATATGCCTGGCCTTTGTAACCGTGTGTTTCCGCGTCACGCCAGCGCCACTCtt > 1:680118/1‑133 (MQ=255)
|
GCCGGAAAGGCAGATAAAGACGGTCATGACCGCCAATGCGGCCACAAGGCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCA‑TTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCATATGCCTGGCCTTTGTAACCGTGTGTTTCCGCGTCACGCCAGCGCCACTCTT > AM260479/1239923‑1240173
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCGCGGGGTGAATGCGCCGGAAAGGCAGATAAAGACGGTCATGACCGCCAATGCGGCCACAAGGCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCA‑TTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCATATGCCTGGCCTTTGTAACCGTGTGTTTCCGCGTCACGCCAGCGCCACTCTTGAAAACCTGCGCC > AM260479/1239908‑1240186
|
GCGCGGGGTGAATGCGCCGGAAAGGCAGATAAAGACGGTCATGACCGCCAATGCGGCCACAAGGCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCA‑TTTT > GWNJ‑0478:712:GW2002102894th:2:2214:19875:24241/1‑150 (MQ=60)
GCGGGGTGAATGCGCCGGAAAGGCAGATAAAGACGGTCATGACCGCCAATGCGGCCACAAGGCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCA‑TTTTtg < GWNJ‑0478:712:GW2002102894th:2:1203:13764:44258/150‑3 (MQ=60)
GCCGGAAAGGCAGATAAAGACGGTCATGACCGCCAATGCGGCCACAAGGCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTAC < GWNJ‑0478:712:GW2002102894th:2:2208:14261:55565/150‑1 (MQ=60)
GGCAGATAAAGACGGTCATGACCGCCAATGCGGCCACAAGGCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATC > GWNJ‑0478:712:GW2002102894th:2:2114:5878:84309/1‑150 (MQ=60)
gctccgtctcgtgggctcgggagatgtgtataagagacagATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGC < GWNJ‑0478:712:GW2002102894th:2:1214:20812:10132/110‑1 (MQ=60)
AGGCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGAT < GWNJ‑0478:712:GW2002102894th:2:1205:7960:23404/150‑1 (MQ=60)
GTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCATAT > GWNJ‑0478:712:GW2002102894th:2:1101:19806:68423/1‑150 (MQ=60)
CACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCATATGCC < GWNJ‑0478:712:GW2002102894th:2:1215:20357:90546/149‑1 (MQ=60)
ACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCATATGCCctgtc > GWNJ‑0478:712:GW2002102894th:2:2205:6749:62441/1‑145 (MQ=60)
cgtgggctcggagatgtgtataagagacAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCATATGCCTGGCCTTTGTA < GWNJ‑0478:712:GW2002102894th:2:1112:13831:68279/122‑1 (MQ=60)
ATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCATATGCCTGGCCTTTGTAACCG < GWNJ‑0478:712:GW2002102894th:2:1212:2291:51034/149‑1 (MQ=60)
GATGAACCATCTCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCATATGCCTGGCCTTTGTAACCGTGTGTTTCCGCGTCACGCCAGCGCCACTCTTG > GWNJ‑0478:712:GW2002102894th:2:2110:5086:42033/1‑149 (MQ=60)
TCCACAACCCCCGGCATTTTTGTCATTTTTATTACTGGGAATCTTAGTGATctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaaagacacacatccctaat > GWNJ‑0478:712:GW2002102894th:2:1115:20275:84271/1‑51 (MQ=60)
|
GCGCGGGGTGAATGCGCCGGAAAGGCAGATAAAGACGGTCATGACCGCCAATGCGGCCACAAGGCAGAGTGTCACGACTGGCAGCTTATGCATGGCCAACCTTCCGGAAGAGGCACAAAGATGAACCATCTCCACAACCCCCGGCA‑TTTTGTCATTTTTATTACTGGGAATCTTAGTGATTGCGATGCAGCAAAGCAATAAGGCGTCGATTGCATATGCCTGGCCTTTGTAACCGTGTGTTTCCGCGTCACGCCAGCGCCACTCTTGAAAACCTGCGCC > AM260479/1239908‑1240186
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
